ArticleJournal of molecular biology2009
Activity and specificity of the bacterial PD-(D/E)XK homing endonuclease I-Ssp6803I.
Article in Journal of molecular biology, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
12 citing papers in PubMed, 18 citations in OpenAlex.
- Phage-encoded factor stimulates DNA degradation by the Hna anti-phage defense system.Nature communications · 2026Article
- The effect of increasing numbers of repeats on TAL effector DNA binding specificity.Nucleic acids research · 2017Article
- Article
- Rapid determination of homing endonuclease DNA binding specificity profile.Methods in molecular biology (Clifton, N.J.) · 2014Article
- Homing endonucleases: from genetic anomalies to programmable genomic clippers.Methods in molecular biology (Clifton, N.J.) · 2014Review
- Comprehensive homing endonuclease target site specificity profiling reveals evolutionary constraints and enables genome engineering applications.Nucleic acids research · 2012Article
- Activity, specificity and structure of I-Bth0305I: a representative of a new homing endonuclease family.Nucleic acids research · 2011Article
- Homing endonucleases: from microbial genetic invaders to reagents for targeted DNA modification.Structure (London, England : 1993) · 2011Review
- DNA recognition and transcriptional regulation by the WhiA sporulation factor.Scientific reports · 2011Article
- Homing endonucleases: from basics to therapeutic applications.Cellular and molecular life sciences : CMLS · 2010Review
- High-resolution profiling of homing endonuclease binding and catalytic specificity using yeast surface display.Nucleic acids research · 2009Article
- Article
Corrections and comments
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Authors and funding
3 authors at 2 institutions in 1 country.
Funding
Abstract
The restriction endonuclease fold [a three-layer alpha-beta sandwich containing variations of the PD-(D/E)XK nuclease motif] has been greatly diversified during evolution, facilitating its use for many biological functions. Here we characterize DNA binding and cleavage by the PD-(D/E)XK homing endonuclease I-Ssp6803I. Unlike most restriction endonucleases harboring the same core fold, the specificity profile of this enzyme extends over a long (17 bp) target site. The DNA binding and cleavage specificity profiles of this enzyme were independently determined and found to be highly correlated. However, the DNA target sequence contains several positions where binding and cleavage activities are not tightly coupled: individual DNA base-pair substitutions at those positions that significantly decrease cleavage activity have minor effects on binding affinity. These changes in the DNA target sequence appear to correspond to substitutions that uniquely increase the free energy change between the ground state and the transition state, rather than simply decreasing the overall DNA binding affinity. The specificity of the enzyme reflects constraints on its host gene and limitations imposed by the enzyme's quaternary structure and illustrate the highly diverse repertoire of DNA recognition specificities that can be adopted by the related folds surrounding the PD-(D/E)XK nuclease motif.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.